Main
周鹏
基因的表达是如何受到调控，同时又是如何影响植物表型的？我希望结合传统遗传学、比较基因组学和多组学数据挖掘等手段，以玉米和小麦为模型研究作物在生长发育过程和胁迫条件下的基因表达调控机制，鉴定关键的顺式调控元件和反式作用因子用于作物改良。此外，我将借助大数据分析和多组学数据整合构建植物基因调控网络，训练机器学习模型用于预测基因的时空特异性表达模式，对作物进行精准育种和设计。欢迎对生信感兴趣的同学加入我们团队！
教育背景
博士：植物病理学&生物信息学
明尼苏达大学双城分校
圣保罗，美国
2015 - 2009
- 导师：Nevin D Young
硕士：法医遗传学
西安交通大学
中国，西安
2009 - 2007
- 导师：李生斌
学士：生物工程&计算机科学
西安交通大学
中国，西安
2007 - 2003
研究经历
研究员
作物生物信息学
中国农业科学院作物科学研究所，北京
至今 - 2021
博士后
植物与微生物学系
明尼苏达大学双城分校
2021 - 2016
- 导师：Nathan M Springer
农业信息分析师
应用经济系
明尼苏达超级计算中心
2016 - 2015
研究助理
植物病理系
明尼苏达大学双城分校
2015 - 2009
代表性著作
A complete assembly of the sorghum BTx623 reference genome
Plant Commun. 2024, 5: 100977
N/A
2024
- Deng Y*, Zhou P*, Li F*, Wang J*, Xie K*, Liang H, Wang C, Liu B, Zhu Z, Zhou W, et al
Prediction of conserved and variable heat and cold stress response in maize using cis-regulatory information
Plant Cell. 2022, 34: 514-534
N/A
2022
- Zhou P, Enders TA, Myers ZA, Magnusson E, Crisp PA, Noshay J, et al.
- Impact Factor = 11.277
Meta Gene Regulatory Networks in Maize Highlight Functionally Relevant Regulatory Interactions
Plant Cell. 2020, 32: 1377-1396.
N/A
2020
- Zhou P, Li Z, Magnusson E, Cano FAG, Crisp PA, Noshay J, Grotewold E, HirschC, Briggs SP, Springer NM
- Impact Factor = 11.277
Dynamic Patterns of Gene Expression Additivity and Regulatory Variation throughout Maize Development
Molecular Plant. 2019, 12: 410-425.
N/A
2019
- Zhou P, Hirsch CN, Briggs SP, Springer NM
- Impact Factor = 10.812
Exploring structural variation and gene family architecture with De Novo assemblies of 15 Medicago genomes
BMC Genomics. 2017, 18: 261.
N/A
2017
- Zhou P, Silverstein KAT, Ramaraj T, Guhlin J, Denny R, Liu J, et al
其他著作
- Citation = 2866
- H-index = 20
- I10-index = 20
Plant height heterosis is quantitatively associated with expression levels of plastid ribosomal proteins
Proc Natl Acad Sci U S A.. 2021. 118 (47) e2109332118
N/A
2021
- Birdseye D, de Boer LA, Bai H, Zhou P, Shen Z, Schmelz EA, Springer NM, Briggs SP
Widespread imprinting of transposable elements and young genes in the maize endosperm
PLoS Genetics. 2021;17: e1009491.
N/A
- Anderson SN, Zhou P, Higgins K, Brandvain Y, Springer NM
Assessing the regulatory potential of transposable elements using chromatin accessibility profiles of maize transposons
Genetics. 2021, 217: 1–13.
N/A
- Noshay JM, Marand AP, Anderson SN, Zhou P, Guerra MKM, Lu Z, et al
Single-parent expression drives dynamic gene expression complementation in maize hybrids
Plant Journal. 2021, 105: 93–107.
N/A
- Li Z, Zhou P, Della Coletta R, Zhang T, Brohammer AB, H O’Connor C, et al.
The antagonistic MYB paralogs RH1 and RH2 govern anthocyanin leaf markings in Medicago truncatula
New Phytologist. 2021, 229: 3330–3344.
N/A
- Wang C, Ji W, Liu Y, Zhou P, Meng Y, Zhang P, et al.
Stable unmethylated DNA demarcates expressed genes and their cis-regulatory space in plant genomes
Proc Natl Acad Sci U S A.. 2020, 117: 23991–24000.
N/A
2020
- Crisp PA, Marand AP, Noshay JM, Zhou P, Lu Z, Schmitz RJ, et al.
Variation and Inheritance of Small RNAs in Maize Inbreds and F1 Hybrids
Plant Physiol. 2020, 182: 318-331.
N/A
- Crisp PA, Hammond R, Zhou P, Vaillancourt B, Lipzen A, Daum C, et al
Monitoring the interplay between transposable element families and DNA methylation in maize
PLoS Genetics. 2019, 15: e1008291.
N/A
2019
- Noshay JM, Anderson SN, Zhou P, Ji L, Ricci W, Lu Z, et al
Transposable elements contribute to dynamic genome content in maize
Plant Journal. 2019, 100: 1052-1065.
N/A
- Anderson SN, Stitzer MC, Brohammer AB, Zhou P, Noshay JM, O’Connor CH, et al
Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model
BMC Genomics. 2017, 18: 578.
N/A
2017
- Moll KM*, Zhou P*, Ramaraj T, Fajardo D, Devitt NP, Sadowsky MJ, et al
Hybrid assembly with long and short reads improves discovery of gene family expansions
BMC Genomics. 2017, 18: 541.
N/A
- Miller JR, Zhou P, Mudge J, Gurtowski J, Lee H, Ramaraj T, et al
ODG: Omics database generator - a tool for generating, querying, and analyzing multi-omics comparative databases to facilitate biological understanding
BMC Bioinformatics. 2017, 18: 367.
N/A
- Guhlin J, Silverstein KAT, Zhou P, Tiffin P, Young ND
Exploring structural variants in environmentally sensitive gene families
Curr Opin Plant Biol. 2016, 30: 19–24.
N/A
2016
- Young ND, Zhou P, Silverstein KA
Genomic signature of adaptation to climate in Medicago truncatula
Genetics. 2014, 196: 1263–1275.
N/A
2014
- Yoder JB, Stanton-Geddes J, Zhou P, Briskine R, Young ND, Tiffin P
Selection, genome-wide fitness effects and evolutionary rates in the model legume Medicago truncatula
Molecular Ecology. 2011, 108: E864-70.
N/A
2013
- Paape T, Bataillon T, Zhou P, J Y Kono T, Briskine R, Young ND, et al
Detecting small plant peptides using SPADA (Small Peptide Alignment Discovery Application)
BMC Bioinformatics. 2013, 14: 335.
N/A
- Zhou P, Silverstein KA, Gao L, Walton JD, Nallu S, Guhlin J, et al
Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula
Proc Natl Acad Sci U S A. 2013, 22: 3525–3538.
N/A
- Branca A, Paape TD, Zhou P, Briskine R, Farmer AD, Mudge J, et al
Fine-scale population recombination rates, hotspots, and correlates of recombination in the Medicago truncatula genome)
Genome Biol Evol. 2012, 4: 726–737.
N/A
2012
- Paape T, Zhou P, Branca A, Briskine R, Young N, Tiffin P
The Medicago genome provides insight into the evolution of rhizobial symbioses
Nature. 2011, 480: 520-524.
N/A
2011
- Young ND, Debellé F, Oldroyd GED, … , Zhou P, …, et al
- ESI Highly Cited Paper
职业经历
杂志审稿人
N/A
N/A
- Plant Biotechnology Journal
- Plant Physiology
- JIPB
- Crop Journal
- The Plant Genome
大会经历
Meta gene regulatory networks in maize refine functionally relevant regulatory interactions
Plant and Animal Genome XXVIII Conference
圣地亚哥
2020
Exploring Functional Transcriptomics using Gene Regulatory Networks in Maize.
61st Annual Maize Genetics Conference
圣路易斯
2019
Documenting the Manifestations of Heterosis in Co-expression Networks for Maize
Plant and Animal Genome XXVI Conference
圣地亚哥
2018
The Medicago Pan-Genome Reveals Large-scale Variation
Plant and Animal Genome XXII Conference
圣地亚哥
2014
Detecting secreted peptides in plants using SPADA (Secreted Peptide Alignment Discovery Algorithm)
Plant and Animal Genome XXI Conference
圣地亚哥
2013
Population-Scale Deep Sequencing Reveals Extensive Structural Variation in Medicago species
Minnesota Supercomputing Institute Research Exhibition
明尼阿波利斯
2011
Genome Distribution and Population Genetics of Nodule-Specific Cysteine-Rich (NCR) Peptides in Medicago
Plant and Animal Genome XIX Conference
圣地亚哥
A Medicago truncatula Hapmap as a Platform for Exploring the Genetics of Symbiosis
Plant and Animal Genome XVIII Conference
圣地亚哥
2010
应邀报告
Co-expression based Gene Regulatory Networks Predict Functional Interactions in Maize
N/A
中国农业大学，北京
2019
Transcriptome Dynamics in Maize
N/A
华中农业大学，武汉
Toward a Medicago Pan-genome: Assembling and Comparing Multiple Genomes
Medicago truncatula Workshop
Noble Research Institute, Ardmore
2016
Assembling and Comparing Multiple High-Quality Medicago Genomes
N/A
中国农业科学院，北京